General information for g12413.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12413 is located on chr_1: 23437309..23437867 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g12413 | g12413.t2 | isoform | g12413.t2 | 23437309 | 23437867 |
| chr_1 | g12413 | g12413.t2 | exon | g12413.t2.exon1 | 23437309 | 23437413 |
| chr_1 | g12413 | g12413.t2 | cds | g12413.t2.CDS1 | 23437309 | 23437413 |
| chr_1 | g12413 | g12413.t2 | exon | g12413.t2.exon2 | 23437475 | 23437867 |
| chr_1 | g12413 | g12413.t2 | cds | g12413.t2.CDS2 | 23437475 | 23437867 |
| chr_1 | g12413 | g12413.t2 | TSS | g12413.t2 | NA | NA |
| chr_1 | g12413 | g12413.t2 | TTS | g12413.t2 | NA | NA |
Sequences
>g12413.t2 Gene=g12413 Length=498
ATGCTTTGCGTAATGATAAAAGACATCCTTTCGCCAAAGTTCATATATAACAAGCAAAAT
AGTGAATATCTGTTTAAGGAAAATATTATTATCCTCTTTATTAAATTTAGTGTAGAGCAT
CAACGTGAAATAATGAAAATTCAAACATCTTCTGATCAATTGCTTAACTACGGTAAATTC
TTGAATTCTACAATGTACAGTGATTTTACTTTTGTATCTTTGGATAACATTGAAAATCCC
GTTCATCGTCTTGTACTTATTTCACAATCACATGTTCTTGAGCAACTATTTGAGACTAAA
TTTGATTTCCATATGACAAAAAAAGCTGTAATTGATTTAGAAAGTGAAACATTATTAGAA
ATGTTAAGATATATTTACACTGGTCAAGTTGAGAATTTGGATAAGAAAGCATCTGTTTTT
ATAACTGTTGCTGAAAAGTATGAACTAATTGGTCTAAAACAAATATGTATTGCATCATTC
ATAAAAACTTATCGATAA
>g12413.t2 Gene=g12413 Length=165
MLCVMIKDILSPKFIYNKQNSEYLFKENIIILFIKFSVEHQREIMKIQTSSDQLLNYGKF
LNSTMYSDFTFVSLDNIENPVHRLVLISQSHVLEQLFETKFDFHMTKKAVIDLESETLLE
MLRYIYTGQVENLDKKASVFITVAEKYELIGLKQICIASFIKTYR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g12413.t2 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 35 | 164 | 0.00000 |
| 2 | g12413.t2 | PANTHER | PTHR24413 | SPECKLE-TYPE POZ PROTEIN | 36 | 158 | 0.00000 |
| 1 | g12413.t2 | Pfam | PF00651 | BTB/POZ domain | 59 | 161 | 0.00000 |
| 6 | g12413.t2 | ProSiteProfiles | PS50097 | BTB domain profile. | 67 | 134 | 12.30900 |
| 4 | g12413.t2 | SMART | SM00225 | BTB_4 | 67 | 164 | 0.00071 |
| 3 | g12413.t2 | SUPERFAMILY | SSF54695 | POZ domain | 50 | 160 | 0.00000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed